Sliding MinPD: building evolutionary networks of serial samples via an automated recombination detection approach.

ABSTRACT:

Motivation

Traditional phylogenetic methods assume tree-like evolutionary models and are likely to perform poorly when provided with sequence data from fast-evolving, recombining viruses. Furthermore, these methods assume that all the sequence data are from contemporaneous taxa, which is not valid for serially-sampled data. A more general approach is proposed here, referred to as the Sliding MinPD method, that reconstructs evolutionary networks for serially-sampled sequences in the presence of recombination.

Results

Sliding MinPD combines distance-based phylogenetic methods with automated recombination detection based on the best-known sliding window approaches to reconstruct serial evolutionary networks. Its performance was evaluated through comprehensive simulation studies

SUBMITTER: Buendia P 

PROVIDER: S-EPMC3187926 | biostudies-literature | 2007 Nov

REPOSITORIES: biostudies-literature